Integrative structural modelling and visualisation of a cellular organelle is a dataset published in QRB Discovery (2022). On theSindex it has a DataRank of 0.779, placing it in the top 25.8% of the data-sharing corpus. It has been cited 26 times, with 19 citing works in its 1-hop citation network. Its calibrated FAIR score is 46/100.
Ranks in the top 26% for downstream scientific impact
Linked data & code
DataRank reads this dataset's downstream impact straight off the citation graph — no black box, no proprietary weighting. How is this computed?
FAIR checklist signals are shown for context only and do not affect DataRank scoring.
Full FAIR picture · advisory
The headline score is computed from the scored criteria — the fact-shaped checks (a repository, an accession, a licence) that two independent models agree on. The advisory criteria below are real FAIR guidance but rest on judgment calls that models read differently, so they inform without moving the number.
“https://github.com/ccsb-scripps/ISG”
The only identifier for the data is a GitHub URL, which is not a persistent identifier scheme.
RDA-F1-01D — FAIR Data Maturity Model: 'Data is identified by a persistent identifier' (priorit · RDA-F1-02D — FAIR Data Maturity Model: 'Data is identified by a globally unique identifier' · FsF-F1-02D — F-UJI/FAIRsFAIR: 'Data is assigned a persistent identifier'
“Models and volumes for the mature and immature vesicles are available at https://github.com/ccsb-scripps/ISG.”
GitHub is a general file-hosting service, not a domain-specific data repository.
RDA-F4-01M — FAIR Data Maturity Model: metadata is offered so it can be harvested and indexed ( · NIH DMS Policy Element 4 (NOT-OD-21-014) — name the repository where data will be archived · NSTC Desirable Characteristics of Data Repositories (2022) — 'Long-Term Sustainability', 'Reten
“Models and volumes for the mature and immature vesicles are available at https://github.com/ccsb-scripps/ISG.”
The dataset identifier appears only in the body text, not as a reference-list entry.
FORCE11 Joint Declaration of Data Citation Principles (2014) — data should be cited as a first- · RDA-F3-01M — metadata clearly and explicitly includes the identifier of the data it describes · FsF-F3-01M — F-UJI: 'Metadata includes the identifier of the data it describes'
Advisory · not in the published score
“Models and volumes for the mature and immature vesicles are available at https://github.com/ccsb-scripps/ISG.”
The statement points to a GitHub site, which is not a repository record with a persistent identifier. [majority verdict 'partial' (3/5 passes agreed)]
Colavizza, Hrynaszkiewicz, Staden, Whitaker & McGillivray (2020), 'The citation advantage of li · Springer Nature research data policy — Data Availability Statements: standard statement templat · RDA-F3-01M — metadata clearly and explicitly includes the identifier of the data it describes
“The full model (idealised mature and immature granules surrounded by cytoplasmic proteins) consists of 424,384 individual proteins represented by 2,343,538 beads of radius 17.0 Å.”
The description of the dataset's content is given in running prose, not as an itemised inventory.
RDA-F2-01M — 'Rich metadata is provided to allow discovery' (priority Essential) · FsF-F2-01M — F-UJI: 'Metadata includes descriptive core elements to support data findability' · FsF-R1-01MD — F-UJI: 'Metadata specifies the content of the data'
“Models and volumes for the mature and immature vesicles are available at https://github.com/ccsb-scripps/ISG.”
The data are stated to be available at a public URL with no precondition.
RDA-A1.1-01D — 'Data is accessible through a free access protocol' · FsF-A1-01M — F-UJI: 'Metadata contains access level and access conditions of the data' · NSTC Desirable Characteristics of Data Repositories (2022) — 'Free and Easy Access'
Advisory · not in the published score
“Models and volumes for the mature and immature vesicles are available at https://github.com/ccsb-scripps/ISG.”
The data availability statement gives a URL but no explicit access-level label, describing an action from which the level must be inferred.
FsF-A1-01M — F-UJI: 'Metadata contains access level and access conditions of the data' · RDA-A1-01M — metadata contains information to enable the user to get access to the data · COAR Controlled Vocabularies — Access Rights v1.0 (open / embargoed / restricted / metadata-onl
The data are not sensitive or human-subject, and no gatekeeper is named.
NIH Genomic Data Sharing Policy (NOT-OD-14-124) — controlled-access via a Data Access Committee · RDA-A1.2-01D — 'Data is accessible through an access protocol that supports authentication and · NIH DMS Policy Element 5 (NOT-OD-21-014) — Access, Distribution, or Reuse Considerations (conse
No sentence addresses when the data are available or how long they persist.
NIH DMS Plan Element 4 (NOT-OD-21-014) — Data Preservation, Access, and Associated Timelines · NSTC Desirable Characteristics (2022), Organizational Infrastructure: 'Retention Policy' · RDA-A2-01M — 'Metadata is guaranteed to remain available after data is no longer available'
“Final models are saved/exported in different resolutions and file formats (.bin, .pdb and .cif) to enable visualisation with other molecular graphics software.”— not found in the paper; verdict downgraded
PDB and CIF are open, community-standard formats. [downgraded to 'partial' — no verifiable quote from the paper] [majority verdict 'partial' (4/5 passes agreed)]
FsF-R1.3-02D — F-UJI: 'Data is available in a file format recommended by the target research co · RDA-R1.3-02D — data is expressed in a machine-understandable community standard · RDA-I1-01D — data uses a knowledge representation expressed in a standardised format
Advisory · not in the published score
No community data or metadata standard is named for the data.
RDA-R1.3-01M — 'Metadata complies with a community standard' (priority Essential) · RDA-R1.3-01D — 'Data complies with a community standard' · RDA-I2-01M — '(Meta)data use vocabularies that follow FAIR principles'
“The insulin crystal is based on entry 1trz from the RCSB Protein Data Bank”
The paper references external resources using persistent identifiers (e.g., PDB ID 1trz).
RDA-I3-01M — '(meta)data include references to other (meta)data' · RDA-I3-03M — 'metadata includes qualified references to other metadata' · FsF-I3-01M — F-UJI: 'Metadata includes links between the data and its related entities'
No license for the data is stated; the article's CC-BY license applies to the paper, not the data.
RDA-R1.1-01M — 'Metadata includes information about the licence under which the data can be reu · RDA-R1.1-02M — 'Metadata refers to a standard reuse licence' · RDA-R1.1-03M — 'Metadata refers to a machine-understandable reuse licence'
No version token or date is given for the data snapshot.
DataCite Metadata Schema 4.6 — the 'Version' property · RDA-R1.2-01M — provenance information (which version was used is provenance) · NSTC Desirable Characteristics of Data Repositories (2022) — 'Provenance', 'Retention Policy'
No locator is given for the study's own code; only third-party tools are mentioned.
NIH DMS Policy Element 2 (NOT-OD-21-014) — 'Related Tools, Software and/or Code' · FAIR4RS Principles v1.0 (Chue Hong et al., 2022; RDA/FORCE11/ReSA) — FAIR Principles for Resear · FORCE11 Software Citation Principles (Smith, Katz & Niemeyer, 2016, PeerJ CS 2:e86)
“NIH R01 GM120604 (DSG)”
An award number is provided for a named funder.
DataCite Metadata Schema 4.6 — 'FundingReference' property (funderName, funderIdentifier, award · Crossref Funder Registry — canonical funder identifiers for funding metadata · RDA-F2-01M — rich metadata provided to allow discovery (funding is part of the descriptive reco
Advisory · not in the published score
“Models were generated using a modified version of our instant distribution software (Klein et al., 2018), based on cellPACK”
The text names specific software (cellPACK, LAMMPS) used to produce the data. [majority verdict 'yes' (3/5 passes agreed)]
RDA-R1.2-01M — 'Metadata includes provenance information according to community- specific standa · FsF-R1.2-01M — F-UJI: 'Metadata includes provenance information about data creation or generati · W3C PROV-O (W3C Recommendation, 2013) — the entity/activity/agent model of provenance
“The set of 29 manually curated proteins (Supplementary Table 1)”
Variable definitions are provided in supplementary tables inside the article, not as a separate documentation object shipped with the data. [majority verdict 'partial' (3/5 passes agreed)]
RDA-R1-01M — '(Meta)data are richly described with a plurality of accurate and relevant attribu · FsF-R1-01MD — F-UJI: 'Metadata specifies the content of the data' · NIH DMS Policy Element 3 (NOT-OD-21-014) — Standards (documentation and metadata to accompany t
Calibrated FAIR score — a parallel quality metric, independent of the DataRank citation score. See the full evaluation →
Base Score Contribution
0.494
From this paper's citation signal
Citation Network Contribution
0.285
From 13 citing papers with measurable signal
Ranked by each citer's contribution to N(p) — log1p(Cq) divided by its reference count — out of 19 citers.
NIGMS NIH HHS
Grant: R01 GM120604
National Institutes of Health
Grant: 1F31DE019749-01A1
Dysregulation of microRNAs in HPV-Positive Oropharyngeal Cancers
National Institutes of Health
Grant: 5R01GM120604-03
Modeling and Interacting with the Visible Molecular Cell
National Institutes of Health
Grant: 1P30GM138441-01
Biological Soft X-ray Tomography at the Advanced Light Source
National Science Foundation
Grant: 1832184
PDB Management by The Research Collaboratory for Structural Bioinformatics
National Institutes of Health
Grant: 5R01GM133198-02
PDB MANAGEMENT BY THE RESEARCH COLLABORATORY FOR STRUCTURAL BIOINFORMATICS
FWCI
4.83
Citation Percentile
1.0%
Citation Trend
Fields of Study
Keywords